data_A1JIZ # _chem_comp.id A1JIZ _chem_comp.name "5-[[2-[(2~{R},3~{R},4~{R},5~{R},6~{R})-6-(hydroxymethyl)-3,5-bis(oxidanyl)-4-[4-[3,4,5-tris(fluoranyl)phenyl]-1,2,3-triazol-1-yl]oxan-2-yl]ethylamino]methyl]-1,3-dihydrobenzimidazol-2-one" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C24 H25 F3 N6 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2025-06-27 _chem_comp.pdbx_modified_date 2026-07-03 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 534.488 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1JIZ _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 9RRE _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE _chem_comp.pdbx_pcm ? # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal A1JIZ N1 N1 N 0 1 N N N N N N -25.865 7.723 -0.681 9.113 -1.980 0.756 N1 A1JIZ 1 A1JIZ N3 N2 N 0 1 N N N N N N -21.493 10.250 -3.020 4.100 0.649 0.575 N3 A1JIZ 2 A1JIZ C4 C1 C 0 1 N N N N N N -22.797 10.339 -3.736 5.356 1.390 0.752 C4 A1JIZ 3 A1JIZ C6 C2 C 0 1 N N N N N N -26.238 6.410 -0.752 9.935 -2.336 -0.249 C6 A1JIZ 4 A1JIZ C7 C3 C 0 1 Y N N N N N -10.750 9.046 -1.086 -6.669 -2.169 -0.324 C7 A1JIZ 5 A1JIZ C8 C4 C 0 1 Y N N N N N -13.187 8.664 -1.188 -4.445 -1.053 -0.170 C8 A1JIZ 6 A1JIZ C10 C5 C 0 1 Y N N N N N -10.828 9.173 1.651 -7.964 0.278 -0.122 C10 A1JIZ 7 A1JIZ C15 C6 C 0 1 N N N N N N -20.711 9.088 -3.483 2.973 1.370 1.181 C15 A1JIZ 8 A1JIZ C17 C7 C 0 1 Y N N N N N -23.663 9.158 -3.338 6.487 0.621 0.119 C17 A1JIZ 9 A1JIZ C20 C8 C 0 1 Y N N N N N -24.394 9.154 -2.146 7.194 -0.301 0.865 C20 A1JIZ 10 A1JIZ C21 C9 C 0 1 Y N N N N N -25.075 8.010 -1.742 8.234 -1.009 0.282 C21 A1JIZ 11 A1JIZ C22 C10 C 0 1 Y N N N N N -24.986 6.855 -2.511 8.563 -0.786 -1.056 C22 A1JIZ 12 A1JIZ OP3 O1 O 0 1 N N N N N N -20.801 6.101 -0.828 1.093 4.490 -1.059 OP3 A1JIZ 13 A1JIZ C1 C11 C 0 1 N N N N N N -19.422 6.201 -0.477 -0.142 3.775 -1.124 C1 A1JIZ 14 A1JIZ C2 C12 C 0 1 N N R N N N -18.756 7.222 -1.375 0.032 2.397 -0.481 C2 A1JIZ 15 A1JIZ "C5'" C13 C 0 1 N N R N N N -17.262 7.249 -1.112 -1.252 1.584 -0.661 "C5'" A1JIZ 16 A1JIZ "C4'" C14 C 0 1 N N R N N N -16.639 8.328 -1.993 -1.091 0.229 0.037 "C4'" A1JIZ 17 A1JIZ NAA N3 N 0 1 Y N N N N N -15.197 8.416 -1.814 -2.342 -0.526 -0.065 NAA A1JIZ 18 A1JIZ N2 N4 N 0 1 Y N N N N N -14.463 8.068 -2.852 -2.442 -1.802 -0.197 N2 A1JIZ 19 A1JIZ NAB N5 N 0 1 Y N N N N N -13.216 8.256 -2.482 -3.677 -2.153 -0.257 NAB A1JIZ 20 A1JIZ CAA C15 C 0 1 Y N N N N N -11.944 8.920 -0.426 -5.929 -0.997 -0.197 CAA A1JIZ 21 A1JIZ CAB C16 C 0 1 Y N N N N N -9.599 9.252 -0.366 -8.050 -2.113 -0.349 CAB A1JIZ 22 A1JIZ F1 F1 F 0 1 N N N N N N -8.367 9.374 -1.006 -8.769 -3.250 -0.477 F1 A1JIZ 23 A1JIZ C9 C17 C 0 1 Y N N N N N -11.997 8.957 0.966 -6.583 0.229 -0.096 C9 A1JIZ 24 A1JIZ F2 F2 F 0 1 N N N N N N -10.820 9.220 3.017 -8.599 1.467 -0.029 F2 A1JIZ 25 A1JIZ C11 C18 C 0 1 Y N N N N N -9.640 9.330 1.002 -8.698 -0.892 -0.243 C11 A1JIZ 26 A1JIZ F3 F3 F 0 1 N N N N N N -8.500 9.496 1.708 -10.048 -0.841 -0.268 F3 A1JIZ 27 A1JIZ C12 C19 C 0 1 Y N N N N N -14.473 8.794 -0.759 -3.588 0.002 -0.046 C12 A1JIZ 28 A1JIZ "O5'" O2 O 0 1 N N N N N N -16.993 7.581 0.273 -2.350 2.292 -0.082 "O5'" A1JIZ 29 A1JIZ "O2'" O3 O 0 1 N N N N N N -19.334 8.541 -1.095 0.306 2.553 0.913 "O2'" A1JIZ 30 A1JIZ "C2'" C20 C 0 1 N N R N N N -18.810 9.594 -1.932 0.512 1.321 1.608 "C2'" A1JIZ 31 A1JIZ "C1'" C21 C 0 1 N N N N N N -19.236 9.432 -3.400 1.686 0.570 0.976 "C1'" A1JIZ 32 A1JIZ C18 C22 C 0 1 Y N N N N N -23.627 8.016 -4.132 6.813 0.842 -1.209 C18 A1JIZ 33 A1JIZ C19 C23 C 0 1 Y N N N N N -24.241 6.842 -3.710 7.847 0.142 -1.798 C19 A1JIZ 34 A1JIZ N6 N6 N 0 1 N N N N N N -25.666 5.892 -1.846 9.629 -1.631 -1.355 N6 A1JIZ 35 A1JIZ O6 O4 O 0 1 N N N N N N -26.850 5.816 -0.006 10.820 -3.167 -0.170 O6 A1JIZ 36 A1JIZ "C3'" C24 C 0 1 N N R N N N -17.291 9.676 -1.739 -0.753 0.464 1.512 "C3'" A1JIZ 37 A1JIZ "O3'" O5 O 0 1 N N N N N N -16.746 10.660 -2.611 -0.530 -0.791 2.157 "O3'" A1JIZ 38 A1JIZ H22 H1 H 0 1 N N N N N N -26.132 8.366 0.037 9.128 -2.342 1.656 H22 A1JIZ 39 A1JIZ H16 H2 H 0 1 N N N N N N -21.665 10.158 -2.039 4.175 -0.285 0.950 H16 A1JIZ 40 A1JIZ H17 H4 H 0 1 N N N N N N -23.304 11.276 -3.463 5.271 2.368 0.278 H17 A1JIZ 41 A1JIZ H18 H5 H 0 1 N N N N N N -22.623 10.319 -4.822 5.555 1.518 1.816 H18 A1JIZ 42 A1JIZ H7 H6 H 0 1 N N N N N N -10.714 8.984 -2.164 -6.165 -3.121 -0.407 H7 A1JIZ 43 A1JIZ H14 H7 H 0 1 N N N N N N -20.978 8.852 -4.524 3.156 1.499 2.248 H14 A1JIZ 44 A1JIZ H15 H8 H 0 1 N N N N N N -20.925 8.219 -2.844 2.872 2.348 0.709 H15 A1JIZ 45 A1JIZ H21 H9 H 0 1 N N N N N N -24.430 10.044 -1.535 6.937 -0.471 1.900 H21 A1JIZ 46 A1JIZ H1 H10 H 0 1 N N N N N N -21.225 5.462 -0.268 1.056 5.374 -1.449 H1 A1JIZ 47 A1JIZ H2 H11 H 0 1 N N N N N N -19.331 6.518 0.572 -0.912 4.330 -0.589 H2 A1JIZ 48 A1JIZ H3 H12 H 0 1 N N N N N N -18.937 5.223 -0.608 -0.438 3.655 -2.166 H3 A1JIZ 49 A1JIZ H4 H13 H 0 1 N N N N N N -18.934 6.951 -2.426 0.862 1.876 -0.959 H4 A1JIZ 50 A1JIZ H5 H14 H 0 1 N N N N N N -16.826 6.272 -1.366 -1.438 1.426 -1.723 H5 A1JIZ 51 A1JIZ H6 H15 H 0 1 N N N N N N -16.841 8.055 -3.039 -0.287 -0.332 -0.438 H6 A1JIZ 52 A1JIZ H8 H16 H 0 1 N N N N N N -12.931 8.820 1.490 -6.011 1.140 0.003 H8 A1JIZ 53 A1JIZ H9 H17 H 0 1 N N N N N N -14.824 9.125 0.207 -3.850 1.045 0.048 H9 A1JIZ 54 A1JIZ H10 H18 H 0 1 N N N N N N -16.054 7.593 0.420 -2.507 3.162 -0.473 H10 A1JIZ 55 A1JIZ H11 H19 H 0 1 N N N N N N -19.230 10.548 -1.581 0.734 1.527 2.655 H11 A1JIZ 56 A1JIZ H12 H20 H 0 1 N N N N N N -19.052 10.374 -3.938 1.503 0.441 -0.090 H12 A1JIZ 57 A1JIZ H13 H21 H 0 1 N N N N N N -18.648 8.625 -3.862 1.787 -0.408 1.448 H13 A1JIZ 58 A1JIZ H19 H22 H 0 1 N N N N N N -23.118 8.042 -5.084 6.255 1.564 -1.786 H19 A1JIZ 59 A1JIZ H20 H23 H 0 1 N N N N N N -24.149 5.935 -4.290 8.099 0.317 -2.833 H20 A1JIZ 60 A1JIZ H23 H24 H 0 1 N N N N N N -25.731 4.935 -2.130 10.074 -1.702 -2.214 H23 A1JIZ 61 A1JIZ H24 H25 H 0 1 N N N N N N -17.095 9.962 -0.695 -1.581 0.981 1.999 H24 A1JIZ 62 A1JIZ H25 H26 H 0 1 N N N N N N -15.805 10.707 -2.488 -0.305 -0.718 3.095 H25 A1JIZ 63 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal A1JIZ C1 OP3 SING N N 1 A1JIZ C1 C2 SING N N 2 A1JIZ C2 "C5'" SING N N 3 A1JIZ "C5'" "C4'" SING N N 4 A1JIZ "C4'" NAA SING N N 5 A1JIZ NAA N2 SING Y N 6 A1JIZ N2 NAB DOUB Y N 7 A1JIZ C8 NAB SING Y N 8 A1JIZ C8 CAA SING N N 9 A1JIZ CAA C7 SING Y N 10 A1JIZ C7 CAB DOUB Y N 11 A1JIZ CAB F1 SING N N 12 A1JIZ CAA C9 DOUB Y N 13 A1JIZ C9 C10 SING Y N 14 A1JIZ C10 F2 SING N N 15 A1JIZ C10 C11 DOUB Y N 16 A1JIZ C11 F3 SING N N 17 A1JIZ C8 C12 DOUB Y N 18 A1JIZ "C5'" "O5'" SING N N 19 A1JIZ C2 "O2'" SING N N 20 A1JIZ "C2'" "O2'" SING N N 21 A1JIZ "C2'" "C1'" SING N N 22 A1JIZ "C1'" C15 SING N N 23 A1JIZ C15 N3 SING N N 24 A1JIZ C4 N3 SING N N 25 A1JIZ C4 C17 SING N N 26 A1JIZ C17 C18 SING Y N 27 A1JIZ C18 C19 DOUB Y N 28 A1JIZ C17 C20 DOUB Y N 29 A1JIZ C20 C21 SING Y N 30 A1JIZ C21 N1 SING N N 31 A1JIZ C21 C22 DOUB Y N 32 A1JIZ C22 N6 SING N N 33 A1JIZ C6 N6 SING N N 34 A1JIZ C6 O6 DOUB N N 35 A1JIZ "C2'" "C3'" SING N N 36 A1JIZ "C3'" "O3'" SING N N 37 A1JIZ "C3'" "C4'" SING N N 38 A1JIZ C12 NAA SING Y N 39 A1JIZ C22 C19 SING Y N 40 A1JIZ C11 CAB SING Y N 41 A1JIZ C6 N1 SING N N 42 A1JIZ N1 H22 SING N N 43 A1JIZ N3 H16 SING N N 44 A1JIZ C4 H17 SING N N 45 A1JIZ C4 H18 SING N N 46 A1JIZ C7 H7 SING N N 47 A1JIZ C15 H14 SING N N 48 A1JIZ C15 H15 SING N N 49 A1JIZ C20 H21 SING N N 50 A1JIZ OP3 H1 SING N N 51 A1JIZ C1 H2 SING N N 52 A1JIZ C1 H3 SING N N 53 A1JIZ C2 H4 SING N N 54 A1JIZ "C5'" H5 SING N N 55 A1JIZ "C4'" H6 SING N N 56 A1JIZ C9 H8 SING N N 57 A1JIZ C12 H9 SING N N 58 A1JIZ "O5'" H10 SING N N 59 A1JIZ "C2'" H11 SING N N 60 A1JIZ "C1'" H12 SING N N 61 A1JIZ "C1'" H13 SING N N 62 A1JIZ C18 H19 SING N N 63 A1JIZ C19 H20 SING N N 64 A1JIZ N6 H23 SING N N 65 A1JIZ "C3'" H24 SING N N 66 A1JIZ "O3'" H25 SING N N 67 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor A1JIZ InChI InChI 1.06 "InChI=1S/C24H25F3N6O5/c25-13-6-12(7-14(26)20(13)27)17-9-33(32-31-17)21-22(35)18(38-19(10-34)23(21)36)3-4-28-8-11-1-2-15-16(5-11)30-24(37)29-15/h1-2,5-7,9,18-19,21-23,28,34-36H,3-4,8,10H2,(H2,29,30,37)/t18-,19-,21-,22+,23+/m1/s1" A1JIZ InChIKey InChI 1.06 DKKQRCUDQTXMJI-RVPFZPFESA-N A1JIZ SMILES_CANONICAL CACTVS 3.385 "OC[C@H]1O[C@H](CCNCc2ccc3NC(=O)Nc3c2)[C@H](O)[C@H]([C@H]1O)n4cc(nn4)c5cc(F)c(F)c(F)c5" A1JIZ SMILES CACTVS 3.385 "OC[CH]1O[CH](CCNCc2ccc3NC(=O)Nc3c2)[CH](O)[CH]([CH]1O)n4cc(nn4)c5cc(F)c(F)c(F)c5" A1JIZ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc2c(cc1CNCC[C@@H]3[C@@H]([C@H]([C@H]([C@H](O3)CO)O)n4cc(nn4)c5cc(c(c(c5)F)F)F)O)NC(=O)N2" A1JIZ SMILES "OpenEye OEToolkits" 2.0.7 "c1cc2c(cc1CNCCC3C(C(C(C(O3)CO)O)n4cc(nn4)c5cc(c(c(c5)F)F)F)O)NC(=O)N2" # _pdbx_chem_comp_identifier.comp_id A1JIZ _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "5-[[2-[(2~{R},3~{R},4~{R},5~{R},6~{R})-6-(hydroxymethyl)-3,5-bis(oxidanyl)-4-[4-[3,4,5-tris(fluoranyl)phenyl]-1,2,3-triazol-1-yl]oxan-2-yl]ethylamino]methyl]-1,3-dihydrobenzimidazol-2-one" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1JIZ "Create component" 2025-06-27 PDBE A1JIZ "Initial release" 2026-07-08 RCSB #